introns

Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)

id
INTEGER (primary key), globally unique identifier for each intron
dinucleotide_pair
TEXT, terminal dinucleotide sequences of the intron
is_minor
INTEGER, indicates if the intron is a minor intron (1) or not (0)
score
REAL, score representing the probability (0-100%) of the intron being minor
length
INTEGER, length of the intron in base pairs
transcript_id
INTEGER (foreign key referencing transcripts(id)), parent transcript
ordinal_index
INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
start
INTEGER, start position of the intron in the genome
end
INTEGER, end position of the intron in the genome
taxonomy_id
INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
scored_motifs
TEXT, motifs scored for the intron
phase
INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
in_cds
INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
relative_position
REAL, relative position of the intron within the transcript (as a percentage of coding length)

7 rows where transcript_id = 34880257

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
196362714 GT-AG 0 1.7970310416071383e-05 9285 rna-XM_026654954.1 34880257 1 4839875 4849159 Terrapene carolina 158814 CAG|GTATGAGATA...TTTCTTTTAATA/TTTCTTTTAATA...CATAG|CTT 0 1 3.816
196362715 GT-AG 0 1.7038447458334672e-05 13238 rna-XM_026654954.1 34880257 2 4849335 4862572 Terrapene carolina 158814 CAG|GTTTGTTAGA...TTGTTTTTGTCT/CCAGGCTTCACC...TTCAG|TTG 1 1 13.09
196362716 GT-AG 0 1.000000099473604e-05 666 rna-XM_026654954.1 34880257 3 4862681 4863346 Terrapene carolina 158814 TAA|GTGAGTTTAA...GTGTATTTAATT/GTGTATTTAATT...CTAAG|CAA 1 1 18.813
196362717 GT-AG 0 1.000000099473604e-05 4880 rna-XM_026654954.1 34880257 4 4863512 4868391 Terrapene carolina 158814 AAG|GTAAGAAGTT...TTTCTGTTGAAA/TTGAAATTTACG...TTCAG|GGA 1 1 27.557
196362718 GT-AG 0 1.000000099473604e-05 1328 rna-XM_026654954.1 34880257 5 4868476 4869803 Terrapene carolina 158814 AGG|GTAAGTGTGA...AAGGCTTTATTT/GCTTTATTTATT...TTTAG|GAA 1 1 32.008
196362719 GT-AG 0 4.290699948928576e-05 2026 rna-XM_026654954.1 34880257 6 4869997 4872022 Terrapene carolina 158814 CAG|GTATGTGAGT...AACTTGTTGATG/AACTTGTTGATG...AACAG|ATA 2 1 42.236
196362720 GT-AG 0 1.000000099473604e-05 13363 rna-XM_026654954.1 34880257 7 4872494 4885856 Terrapene carolina 158814 AAG|GTAAGAAAAT...GTTTTCTAATCT/TGTTTTCTAATC...AATAG|GAC 2 1 67.197

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CREATE TABLE "introns" (
"id" INTEGER,
  "dinucleotide_pair" TEXT,
  "is_minor" INTEGER,
  "score" REAL,
  "length" INTEGER,
  "transcript_id" INTEGER,
  "ordinal_index" INTEGER,
  "start" INTEGER,
  "end" INTEGER,
  "taxonomy_id" INTEGER,
  "scored_motifs" TEXT,
  "phase" INTEGER,
  "in_cds" INTEGER,
  "relative_position" REAL
  ,PRIMARY KEY ([id]),
   FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]),
   FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id])
);
CREATE INDEX [idx_introns_transcript_id]
    ON [introns] ([transcript_id]);
CREATE INDEX [idx_introns_taxonomy_id]
    ON [introns] ([taxonomy_id]);
CREATE INDEX [idx_introns_phase]
    ON [introns] ([phase]);
CREATE INDEX [idx_introns_is_minor]
    ON [introns] ([is_minor]);
CREATE INDEX [idx_introns_dinucleotide_pair]
    ON [introns] ([dinucleotide_pair]);
CREATE INDEX [idx_introns_score]
    ON [introns] ([score]);
CREATE INDEX [idx_introns_in_cds]
    ON [introns] ([in_cds]);